Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 109 of 235
Found at i:37471752 original size:27 final size:27
Alignment explanation
Indices: 37471718--37471836 Score: 114
Period size: 27 Copynumber: 4.4 Consensus size: 27
37471708 GTAATTTCAG
37471718 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
37471745 AA-CTGAGGGTAAAATGGTAATTTTGTG
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
37471772 AATCGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**** * *
37471799 AATCGAGGGTACTTTGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
37471826 AATCGAGGGTA
1 AATCGAGGGTA
37471837 TGTAAACTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:37471807 original size:54 final size:54
Alignment explanation
Indices: 37471717--37471836 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
37471707 AGTAATTTCA
* * * * *
37471717 GAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGT
1 GAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTCTAT
* ***
37471771 GAATCGAGGGTAAAATGATAATTCTATAAA-TCGAGGGTACTTTGGTAATTCTAT
1 GAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATGGTAATTCTAT
*
37471825 AAATCGAGGGTA
1 GAATCGAGGGTA
37471837 TGTAAACTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (54 bp):
GAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATGGTAATTCTAT
Found at i:37477051 original size:30 final size:31
Alignment explanation
Indices: 37476982--37477063 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 31
37476972 CAATCTCAAC
* *
37476982 ATAT-ACTGGGTCGAAGCCTTTGCATTATTC
1 ATATCACTGGGCCGAAGCCTTTGCATTATTA
* *
37477012 ATGTCACTGGGCCGAAGCCTTTTCATTA-TA
1 ATATCACTGGGCCGAAGCCTTTGCATTATTA
37477042 ATATCACTGGGCCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
37477064 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTGCATTATTA
Found at i:37477312 original size:25 final size:25
Alignment explanation
Indices: 37477284--37477379 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
37477274 CTCTTTTAAT
37477284 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
37477309 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
37477334 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
37477359 AACTGGGGCAAAAACCCTTTT
1 AACTGGGGC-AAAGCCCTTTT
37477380 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 57 0.85
26 10 0.15
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:37494496 original size:48 final size:48
Alignment explanation
Indices: 37494371--37494703 Score: 361
Period size: 48 Copynumber: 6.9 Consensus size: 48
37494361 AAAGGTTAAG
* * *
37494371 ATGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA-A-CA
* * * *
37494421 ATGCCGATGCAATGTCCCAGACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACA
* * * *
37494469 ATGCTGAGGCCATATTCCAAACATGGTCTTACACTAGCTCTCATGAA-A
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-AACA
* *
37494517 ATGCCGAGGCCATGTTCCAAACATGGTCTTACACTGGCTCAT-ACAACA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-TCATAACA
* * * *
37494565 ATGTCGATACTATGTTCCAAACATGGTCTTACACTGGCTCAT-ATAATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTC-TCATAACA
* * *
37494613 ATGCCGATGCCATGTTCCAAACATGG--TTACACTAGCTCACATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACA
* * * * *
37494659 AAGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATA
37494704 TAACCCTAGT
Statistics
Matches: 246, Mismatches: 31, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
46 37 0.15
47 2 0.01
48 161 0.65
49 4 0.02
50 42 0.17
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACA
Found at i:37494633 original size:144 final size:142
Alignment explanation
Indices: 37494371--37494699 Score: 412
Period size: 144 Copynumber: 2.3 Consensus size: 142
37494361 AAAGGTTAAG
* * * *
37494371 ATGCCGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATATATCAATGCCGATGCAATGT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATACAACAATGCCGATACAATGT
* *
37494436 CCCAGACATGGTCTTACACTAGCTCTCATAACAATGCTGAGGCCATATTCCAAACATGGTCTTAC
64 CCCAAACATGGTCTTACACTAGCTCTCATAACAATGCCGAGGCCATATTCCAAACATGG--TTAC
*
37494501 ACTAGCTCTCATGA-AA
127 ACTAGCTCACAT-ACAA
* * * * * *
37494517 ATGCCGAGGCCATGTTCCAAACATGGTCTTACACTGGCTCATACAACAATGTCGATACTATGTTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACAACAATGCCGATACAATGTCC
* * * *
37494582 CAAACATGGTCTTACACTGGCTCAT-ATAATAATGCCGATGCCATGTTCCAAACATGGTTACACT
66 CAAACATGGTCTTACACTAGCTC-TCATAACAATGCCGAGGCCATATTCCAAACATGGTTACACT
37494646 AGCTCACATATCAA
130 AGCTCACATA-CAA
*
37494660 A-GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
37494700 CATATAACCC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
141 1 0.01
142 50 0.31
143 3 0.02
144 71 0.45
145 1 0.01
146 33 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (142 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATACAACAATGCCGATACAATGTCC
CAAACATGGTCTTACACTAGCTCTCATAACAATGCCGAGGCCATATTCCAAACATGGTTACACTA
GCTCACATACAA
Found at i:37497578 original size:26 final size:27
Alignment explanation
Indices: 37497536--37497603 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
37497526 ACACACCTTA
* *
37497536 GCTCTT-ATGAACATCCCGATATA-TG
1 GCTCTTCATGAACTTCCCGATAAATTG
* *
37497561 GCTCTTCATGAGCTTCCCGTTAAATTG
1 GCTCTTCATGAACTTCCCGATAAATTG
* *
37497588 GCTCTTCGTGACCTTC
1 GCTCTTCATGAACTTC
37497604 GTGATAGTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 6 0.17
26 13 0.37
27 16 0.46
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (27 bp):
GCTCTTCATGAACTTCCCGATAAATTG
Found at i:37497839 original size:24 final size:23
Alignment explanation
Indices: 37497768--37497846 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
37497758 AGCCTGGATA
*
37497768 AGCTTCCCAAAAGGCTCTTTATA
1 AGCTTCCCAAAAGGCTCTTTATG
37497791 AGCTTCCCAAAAGGCTCTTTATG
1 AGCTTCCCAAAAGGCTCTTTATG
* * *
37497814 AGCTTCCTAAAATGGCTCTGTGTG
1 AGCTTCCCAAAA-GGCTCTTTATG
37497838 AGCTTCCCA
1 AGCTTCCCA
37497847 TTATAAGACT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 33 0.66
24 17 0.34
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (23 bp):
AGCTTCCCAAAAGGCTCTTTATG
Found at i:37500113 original size:40 final size:40
Alignment explanation
Indices: 37500013--37500277 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
37500003 GCTCCTCGTT
* * * *
37500013 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
37500053 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37500092 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
37500132 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
37500172 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
37500212 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37500253 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37500278 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37500237 original size:80 final size:80
Alignment explanation
Indices: 37499980--37500277 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
37499970 AAATCACGTA
* ** * * *
37499980 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
37500042 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
37500058 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
37500121 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
37500138 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
37500202 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
37500218 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
37500278 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:37500286 original size:41 final size:41
Alignment explanation
Indices: 37500209--37500286 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37500199 TTTGTATCTC
* * *
37500209 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37500250 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37500287 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37508101 original size:40 final size:39
Alignment explanation
Indices: 37508003--37508225 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
37507993 TCCTCGTTCA
* * * * *
37508003 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
37508042 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
37508081 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
37508121 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
37508161 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
37508202 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37508226 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:37508225 original size:120 final size:119
Alignment explanation
Indices: 37508003--37508225 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
37507993 TCCTCGTTCA
* * * *
37508003 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
37508068 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
37508122 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
37508186 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
37508226 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:37511779 original size:45 final size:44
Alignment explanation
Indices: 37511694--37511779 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
37511684 TATGTAATCT
* * * *
37511694 GAACTCATTGAGTTGTGTTTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGGGTCTAAGTTCATGATATATATGACATCC
* *
37511738 GAACTCATTGAGTTGGGGTCTAAGTTCGTGATATGTATGACA
1 GAACTCATTGAGTT-GGGTCTAAGTTCATGATATATATGACA
37511780 CATGTTTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
44 14 0.40
45 21 0.60
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (44 bp):
GAACTCATTGAGTTGGGTCTAAGTTCATGATATATATGACATCC
Found at i:37515840 original size:16 final size:16
Alignment explanation
Indices: 37515821--37515851 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37515811 CTTCTTCACT
37515821 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
37515837 TACTTACTTACTTAA
1 TACTCACTTACTTAA
37515852 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:37515857 original size:20 final size:20
Alignment explanation
Indices: 37515818--37515857 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
37515808 AAACTTCTTC
* *
37515818 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
37515838 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
37515858 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:37516226 original size:55 final size:53
Alignment explanation
Indices: 37516091--37516290 Score: 178
Period size: 55 Copynumber: 3.7 Consensus size: 53
37516081 ATCCTTTTGA
* * *
37516091 AACTTACCATTGCCATGTCTCGACATGGTCTTACATG-GTATCC-TTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGTG-A-CCTTTG-CTTATAG
*
37516144 AACTCACCAATGCCATGCCTT-AGCATGGTCTTACATGTGACCTTTGCGTTATAG
1 AACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGTGACCTTTGC-TTATAG
* * * * *
37516198 TAACTTATCAATGCCATGTCTTGACATGGCCTTACATGAT-ATCTTTGCCT-TAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-TGACCTTTGCTTATAG
*
37516251 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATG
1 -AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATG
37516291 GTATCCTTAA
Statistics
Matches: 122, Mismatches: 15, Indels: 18
0.79 0.10 0.12
Matches are distributed among these distances:
52 4 0.03
53 44 0.36
54 10 0.08
55 62 0.51
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGTGACCTTTGCTTATAG
Found at i:37516235 original size:108 final size:110
Alignment explanation
Indices: 37516091--37516290 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 110
37516081 ATCCTTTTGA
* * *
37516091 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
37516154 -TGCCATGCCTTAGCATGGTCTTACATGTGACCTTTGCGTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGTGACCTTTGCGTTATAGT
* * * *
37516199 AACTTATCAATGCCATGTCTTGACATGGCCTTACATGATATCTTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
37516264 TGCCATGCCTTGGCATGGTCTTACATG
66 TGCCATGCCTTAGCATGGTCTTACATG
37516291 GTATCCTTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 7 0.09
110 26 0.32
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGCCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGTGACCTTTGCGTTATAGT
Found at i:37519905 original size:46 final size:46
Alignment explanation
Indices: 37519855--37520030 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37519845 TGGTTGAGCA
37519855 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37519901 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37519946 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37519994 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37520031 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37520011 original size:93 final size:93
Alignment explanation
Indices: 37519852--37520023 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37519842 GGATGGTTGA
* *
37519852 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37519917 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37519945 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37520010 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37520024 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37527482 original size:46 final size:46
Alignment explanation
Indices: 37527432--37527607 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37527422 TGGTTGAGCA
37527432 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37527478 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37527523 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37527571 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37527608 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37527588 original size:93 final size:93
Alignment explanation
Indices: 37527429--37527600 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37527419 GGATGGTTGA
* *
37527429 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37527494 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37527522 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37527587 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37527601 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37528763 original size:56 final size:56
Alignment explanation
Indices: 37528677--37528789 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
37528667 GCCCAACCAA
*
37528677 AAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTTAGGGAAAATTT
1 AAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTTAGAGAAAATTT
*
37528733 AAATTCTAGAAAAAAATTAGTATATAGGTATATGAGTCTAGATTTAGAGAAAATTT
1 AAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTTAGAGAAAATTT
37528789 A
1 A
37528790 CAGATCTTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.33
Consensus pattern (56 bp):
AAATTCTAGAAAAAAATTAGTAGATAGGTATATGAGTCTAGATTTAGAGAAAATTT
Found at i:37534064 original size:14 final size:14
Alignment explanation
Indices: 37534045--37534074 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37534035 ACCCCTTCAT
*
37534045 TCCCTCATTCATCA
1 TCCCTCATCCATCA
37534059 TCCCTCATCCATCA
1 TCCCTCATCCATCA
37534073 TC
1 TC
37534075 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:37534374 original size:15 final size:15
Alignment explanation
Indices: 37534354--37534386 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
37534344 AATGTTAGCT
37534354 TAATTTTATTTAAGC
1 TAATTTTATTTAAGC
37534369 TAATTTTATTTAAGC
1 TAATTTTATTTAAGC
37534384 TAA
1 TAA
37534387 GATGATTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
TAATTTTATTTAAGC
Found at i:37539128 original size:21 final size:21
Alignment explanation
Indices: 37539104--37539144 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37539094 AAATTTTGTT
37539104 GAAATATCAGAATGGAGAATA
1 GAAATATCAGAATGGAGAATA
* *
37539125 GAAATGTCAGAATGGTGAAT
1 GAAATATCAGAATGGAGAAT
37539145 TACTTCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (21 bp):
GAAATATCAGAATGGAGAATA
Found at i:37553515 original size:29 final size:28
Alignment explanation
Indices: 37553479--37553556 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37553469 TCATGAGATT
37553479 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37553509 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37553536 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
37553557 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37553774 original size:174 final size:174
Alignment explanation
Indices: 37553509--37553836 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
37553499 AAATTGTACA
37553509 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
37553574 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37553639 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
37553683 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
37553748 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37553813 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37553837 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37562128 original size:29 final size:28
Alignment explanation
Indices: 37562092--37562169 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
37562082 TCATGAGATT
37562092 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
37562122 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
37562149 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
37562170 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:37562387 original size:174 final size:174
Alignment explanation
Indices: 37562122--37562449 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
37562112 AAATTGTACA
*
37562122 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
37562187 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37562252 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
37562296 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
37562361 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
37562426 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
37562450 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:37570726 original size:46 final size:46
Alignment explanation
Indices: 37570582--37570749 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
37570572 ATTGTGAGCT
* * ***
37570582 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--CTTATGAGAGCC
1 AGTGTAAGACATGTCTTGGACATGCATCAGCCTCGAGACAT-A-AGCC
* * * * *
37570628 AGTGTAACACCATGTCTTGGACATGGCATCGGCGTTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTTGGACAT-GCATCAGCCTCGAGAC-A-TAAGCC
*
37570676 AGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTTGGACATGCATCAGCCTCGAGACATAAGCC
37570722 AGTGTAAGACATGT-TTGAGACATGCATC
1 AGTGTAAGACATGTCTTG-GACATGCATC
37570750 GGCTACGAGA
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 47 0.49
47 26 0.27
48 17 0.18
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTTGGACATGCATCAGCCTCGAGACATAAGCC
Found at i:37571733 original size:25 final size:25
Alignment explanation
Indices: 37571701--37571750 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
37571691 GCCGTGTGTC
37571701 TCAGCCGTGTGAGGGACACTGCCTG
1 TCAGCCGTGTGAGGGACACTGCCTG
37571726 TCAGCCGTGTGAGGGACACTGCCTG
1 TCAGCCGTGTGAGGGACACTGCCTG
37571751 GCACATGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (25 bp):
TCAGCCGTGTGAGGGACACTGCCTG
Found at i:37572080 original size:13 final size:13
Alignment explanation
Indices: 37572059--37572104 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
37572049 ATGGGACACG
37572059 CCCGTGTCCTACA
1 CCCGTGTCCTACA
*
37572072 CCTGTGTCCCT-CA
1 CCCGTGT-CCTACA
*
37572085 CCCGTGTCCCACA
1 CCCGTGTCCTACA
37572098 CCCGTGT
1 CCCGTGT
37572105 GGAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 2 0.07
13 23 0.82
14 3 0.11
ACGTcount: A:0.11, C:0.48, G:0.17, T:0.24
Consensus pattern (13 bp):
CCCGTGTCCTACA
Found at i:37573989 original size:28 final size:28
Alignment explanation
Indices: 37573949--37574006 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
37573939 CAAAAGTACA
37573949 ACAATATTTTAGAAAAGCCATTGGGATC
1 ACAATATTTTAGAAAAGCCATTGGGATC
37573977 ACAATATTTTAGAAAAGCCATTGGGATC
1 ACAATATTTTAGAAAAGCCATTGGGATC
37574005 AC
1 AC
37574007 TTACTTGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (28 bp):
ACAATATTTTAGAAAAGCCATTGGGATC
Found at i:37588145 original size:43 final size:42
Alignment explanation
Indices: 37588059--37588203 Score: 148
Period size: 43 Copynumber: 3.4 Consensus size: 42
37588049 TCCCGGAGAG
* * *
37588059 GGTCTTACATGAAATCGATTAACGATGCCAATGTCTTAGACAT
1 GGTCTTACATGTAATCGA-TAATGATGCCAATGTCCTAGACAT
* *
37588102 GGTCTTACATGTAATCGTATAATGATGCCAATGTCCCATACAT
1 GGTCTTACATGTAATCG-ATAATGATGCCAATGTCCTAGACAT
* * ** * *
37588145 GATATTACACATAATC-ACAATATAATGCCAATGTCCTAGACAT
1 GGTCTTACATGTAATCGA-TA-ATGATGCCAATGTCCTAGACAT
37588188 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
37588204 TCATCTCGGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 79 0.96
44 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GGTCTTACATGTAATCGATAATGATGCCAATGTCCTAGACAT
Found at i:37600614 original size:49 final size:49
Alignment explanation
Indices: 37600552--37600651 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
37600542 TCGGATAAGG
37600552 GAAAGAGAAAGTAGCTGAATAGTCGATTCGTGATAATTCGATAACATCC
1 GAAAGAGAAAGTAGCTGAATAGTCGATTCGTGATAATTCGATAACATCC
*
37600601 GAAAGAGGAAGTAGCTGAATAGTCGATTCGTGATAATTCGATAACATCC
1 GAAAGAGAAAGTAGCTGAATAGTCGATTCGTGATAATTCGATAACATCC
37600650 GA
1 GA
37600652 GGTAAGTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (49 bp):
GAAAGAGAAAGTAGCTGAATAGTCGATTCGTGATAATTCGATAACATCC
Found at i:37601677 original size:47 final size:47
Alignment explanation
Indices: 37601598--37602008 Score: 543
Period size: 47 Copynumber: 8.6 Consensus size: 47
37601588 TATTTGAATA
* **
37601598 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37601647 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
37601694 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37601743 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
**
37601790 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
37601839 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * **
37601886 GATGTGAAAGTGTATAAATGTGATAAGGCCGAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
37601933 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
37601980 GATGTGAAAGTGTATATAAATGTGATAAG
1 AATGTGAAAGTGTATAT--ATGTGATAAG
37602009 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 30, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
47 215 0.66
49 111 0.34
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:37601710 original size:96 final size:96
Alignment explanation
Indices: 37601598--37602008 Score: 637
Period size: 96 Copynumber: 4.3 Consensus size: 96
37601588 TATTTGAATA
*
37601598 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
* * * *
37601663 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGACAAGGCCGAATGGCCAACGTGATG
* **
37601694 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
* * * *
37601759 TATGTGATAAGGCCTAATGGCTAATGTGATG
66 TATGTGACAAGGCCGAATGGCCAACGTGATG
37601790 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
* *
37601855 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGACAAGGCCGAATGGCCAACGTGATG
*
37601886 GATGTGAAAGTGTATA-A-ATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
* *
37601949 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGACAAGGCCGAATGGCCAACGTGATG
* *
37601980 GATGTGAAAGTGTATATAAATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
37602009 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 14, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
94 93 0.31
95 2 0.01
96 204 0.68
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATA
TATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:37601773 original size:143 final size:143
Alignment explanation
Indices: 37601598--37602008 Score: 610
Period size: 143 Copynumber: 2.9 Consensus size: 143
37601588 TATTTGAATA
37601598 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
* *
37601663 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
*
37601728 ATGGCCAATGTGATG
129 ATGGCCAACGTGATG
*
37601743 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG--TATA
* * *
37601808 TATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGA
64 TATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
*
37601871 GTGGCCAACGTGATG
129 ATGGCCAACGTGATG
* * *
37601886 GATGTGAAAGTGTATAAATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
37601951 TGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATATAAATGTGATAAG
66 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
37602009 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
141 40 0.17
143 143 0.60
145 57 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAAT
GGCCAACGTGATG
Found at i:37601788 original size:22 final size:22
Alignment explanation
Indices: 37601713--37601788 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
37601703 GTGTATATAT
*
37601713 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCTA
* *** **
37601735 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCTA
37601759 TATGTGATAAGGCCTAATGGCTA
1 -ATGTGATAAGGCCTAATGGCTA
37601782 ATGTGAT
1 ATGTGAT
37601789 GAATGTGAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 14 0.37
23 9 0.24
24 8 0.21
25 7 0.18
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCTA
Found at i:37610330 original size:43 final size:43
Alignment explanation
Indices: 37610282--37610599 Score: 564
Period size: 43 Copynumber: 7.4 Consensus size: 43
37610272 TTGGTTTTCA
*
37610282 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
37610325 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
37610368 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* * *
37610411 GCCCTAAGTGTGCGGGCAATCAGTGTTCACGGTGGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
*
37610454 GCACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
37610497 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
* *
37610540 GCACTAAGTGTGCGGGCAATAAGTATTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
37610583 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
37610600 TTGAAATGCA
Statistics
Matches: 266, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 266 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.25
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTG
Found at i:37610703 original size:40 final size:40
Alignment explanation
Indices: 37610648--37610885 Score: 379
Period size: 40 Copynumber: 6.0 Consensus size: 40
37610638 AAGCACTATG
*
37610648 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
37610688 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
37610728 TGTGCGAATTGATATATTCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
37610768 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
37610808 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
37610848 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
37610886 ATTGAGCTTG
Statistics
Matches: 184, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 181 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:37610904 original size:120 final size:120
Alignment explanation
Indices: 37610651--37610928 Score: 360
Period size: 120 Copynumber: 2.3 Consensus size: 120
37610641 CACTATGTGT
* * * *
37610651 GCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGA
1 GCGAATGGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTGATACATCCGGGCTAAGA
* ** * *
37610716 CCCGAAGGCATTTGTGCGAATTGATATATTCGGGCTAAGACCCGAAGGCATTTGT
66 CCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGA
*
37610771 GCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGATACATCCGGGCTAAG
1 GCGAATGGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAA-TTGATACATCCGGGCTAAG
* * *
37610835 ACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGA
65 ACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGA
*** * * *
37610891 GCTTGTGGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 GCGAATGGATATATCCGGGCTAAGACCCGAAG-GCAAT
37610929 CATGCTGGTG
Statistics
Matches: 138, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
119 2 0.01
120 131 0.95
121 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
GCGAATGGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTGATACATCCGGGCTAAGA
CCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGA
Found at i:37610907 original size:80 final size:80
Alignment explanation
Indices: 37610648--37610922 Score: 374
Period size: 80 Copynumber: 3.4 Consensus size: 80
37610638 AAGCACTATG
*
37610648 TGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCT
*
37610712 AAGACCCGAAGGCATT
65 AAGACCCGAAGGCAAT
*
37610728 TGTGCGAA-TTGATATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCT
37610792 AAGACCCGAAGGCAAT
65 AAGACCCGAAGGCAAT
* * * * * *
37610808 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTA
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTA
37610873 AGACCCGAAGGCAAT
66 AGACCCGAAGGCAAT
* ** * * * *
37610888 TGAGCTTGTGGTTATATCCGGGCTAGGTCCCGAAG
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAG
37610923 AGCAATCATG
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
79 2 0.01
80 174 0.99
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (80 bp):
TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTA
AGACCCGAAGGCAAT
Found at i:37610920 original size:40 final size:40
Alignment explanation
Indices: 37610648--37610928 Score: 320
Period size: 40 Copynumber: 7.0 Consensus size: 40
37610638 AAGCACTATG
* *
37610648 TGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
37610688 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
37610728 TGTGCGAA-TTGATATATTCGGGCTAAGACCCGAAGGCATT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
37610768 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
37610808 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGC-AT
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * * *
37610847 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * * * *
37610888 TGAGCTTGTGGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAG-GCAAT
37610929 CATGCTGGTG
Statistics
Matches: 218, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 5 0.02
40 205 0.94
41 8 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:37624799 original size:34 final size:34
Alignment explanation
Indices: 37624756--37624821 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
37624746 ATTTCAGTTA
* *
37624756 GGGCCTTAGCTCATTACAGTATCAGTATTAGTGT
1 GGGCCTTAGCCCATTACAGTATCAGTAATAGTGT
*
37624790 GGGCCTTAGCCCATTACAGTATTAGTAATAGT
1 GGGCCTTAGCCCATTACAGTATCAGTAATAGT
37624822 AAAGAATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (34 bp):
GGGCCTTAGCCCATTACAGTATCAGTAATAGTGT
Found at i:37627692 original size:93 final size:93
Alignment explanation
Indices: 37627533--37627719 Score: 293
Period size: 93 Copynumber: 2.0 Consensus size: 93
37627523 TAAGTATAGG
* * *
37627533 TGAGGATCTTCAATAGGCAGTCCACTGAATTGGCCCACTATCTGAAGCATTTGGAACATGACTGG
1 TGAGGATCTTCAATAGGCAGTCCACTGAATTGGACCACTATCTGAAACATCTGGAACATGACTGG
*
37627598 CTTCAGCTCGAACTGTTGTGCCTCAATT
66 CTTCAGCTCGAACTATTGTGCCTCAATT
* * * *
37627626 TGAGGATCTTCAGTAGGCATTCTACTGAATTGGACCACTATCTGAAACATCTGGAACATGATTGG
1 TGAGGATCTTCAATAGGCAGTCCACTGAATTGGACCACTATCTGAAACATCTGGAACATGACTGG
*
37627691 CTTTAGCTCGAACTATTGTGCCTCAATT
66 CTTCAGCTCGAACTATTGTGCCTCAATT
37627719 T
1 T
37627720 CAAGTCTCCT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (93 bp):
TGAGGATCTTCAATAGGCAGTCCACTGAATTGGACCACTATCTGAAACATCTGGAACATGACTGG
CTTCAGCTCGAACTATTGTGCCTCAATT
Found at i:37639241 original size:25 final size:25
Alignment explanation
Indices: 37639206--37639276 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
37639196 GGAGGTAATG
37639206 CAAAAGGGCTTTTACCCAGTTTA-C
1 CAAAAGGGCTTTTACCCAGTTTATC
**
37639230 CGAAAAGGGCTTTGCCCCAGTTTATC
1 C-AAAAGGGCTTTTACCCAGTTTATC
*
37639256 CAAAAGGG-ATTTACCCCAGTT
1 CAAAAGGGCTTTTA-CCCAGTT
37639277 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 3 0.08
25 34 0.87
26 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (25 bp):
CAAAAGGGCTTTTACCCAGTTTATC
Found at i:37639531 original size:30 final size:31
Alignment explanation
Indices: 37639497--37639579 Score: 125
Period size: 30 Copynumber: 2.7 Consensus size: 31
37639487 CATTTACAGT
*
37639497 AAAGGCTTTGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
37639527 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
37639558 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
37639580 TTGAGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 25 0.52
31 23 0.48
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:37639562 original size:31 final size:30
Alignment explanation
Indices: 37639497--37639574 Score: 120
Period size: 31 Copynumber: 2.6 Consensus size: 30
37639487 CATTTACAGT
* *
37639497 AAAGGCTTTGGCCCAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
*
37639527 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
37639558 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
37639575 ATATGTTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 21 0.48
31 23 0.52
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:37643871 original size:47 final size:45
Alignment explanation
Indices: 37643803--37644058 Score: 170
Period size: 47 Copynumber: 5.5 Consensus size: 45
37643793 TATGTGTGCT
37643803 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CACATTATGAGAGCC
* * *
37643849 AGTGTAAGACCATGTCTGGGACATGGCATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACACATT---ATGAGAGCC
* * * * *
37643897 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGA-GATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCA-TCGACAC-ATTATG-AGAGCC
* * * * *
37643943 AGTGTAAGACATGTCTGGAACATGCATCGGCTACATGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-ACATTATGAGAGCC
*
37643987 AGTGTAAGACCATGTCTGGGACATGGCAT-GA-AC-TTAACGTGAGAACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACACATT-A--TGAGAGCC
*
37644034 AGTGTAAGACCATGTCTTGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
37644059 GTATCAGCAT
Statistics
Matches: 167, Mismatches: 23, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 10 0.06
45 23 0.14
46 50 0.30
47 56 0.34
48 22 0.13
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACACATTATGAGAGCC
Found at i:37643957 original size:46 final size:46
Alignment explanation
Indices: 37643803--37644011 Score: 169
Period size: 46 Copynumber: 4.5 Consensus size: 46
37643793 TATGTGTGCT
* * *
37643803 AGTGTAAGACATGTCTGGGACATGCA-TCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAG-CCTCGA-GATGAGAGCC
** * * * *
37643849 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCGAGATGAGAGCC
*
37643897 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATGTA-AACC
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATG-AGAGCC
* * * * * *
37643943 AGTGTAAGACATGTCTGGAACATGCA-TCGGCT--ACATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATGA-GAGCC
37643987 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
37644012 GCATGAACTT
Statistics
Matches: 132, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 10 0.08
45 18 0.14
46 48 0.36
47 29 0.22
48 20 0.15
49 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATGAGAGCC
Found at i:37645076 original size:28 final size:28
Alignment explanation
Indices: 37645036--37645091 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
37645026 ACACTGGGTA
37645036 GGACACGTGC-GTGTCATGGCCGTGTGAG
1 GGACACGTGCGGTGTCA-GGCCGTGTGAG
37645064 GGACACAG-GCGTGTGTCAGGCCGTGTGA
1 GGACAC-GTGCG-GTGTCAGGCCGTGTGA
37645092 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.16, C:0.21, G:0.43, T:0.20
Consensus pattern (28 bp):
GGACACGTGCGGTGTCAGGCCGTGTGAG
Found at i:37646825 original size:46 final size:46
Alignment explanation
Indices: 37646769--37647631 Score: 1520
Period size: 46 Copynumber: 18.7 Consensus size: 46
37646759 TTGAGCATCC
* * * *
37646769 GAACTTGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
* * * *
37646815 GAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAA-T--G--TCT
37646862 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37646908 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37646954 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647000 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647046 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647092 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647138 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647184 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647230 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647276 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647322 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647368 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647414 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647460 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
37647506 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
* * *
37647552 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-TGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCT-AATGTCT
* *
37647598 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37647632 GCGGGTTACA
Statistics
Matches: 791, Mismatches: 16, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.01
45 4 0.01
46 743 0.94
47 27 0.03
48 3 0.00
50 5 0.01
51 3 0.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGTCT
Found at i:37655080 original size:46 final size:46
Alignment explanation
Indices: 37655030--37655391 Score: 370
Period size: 46 Copynumber: 7.8 Consensus size: 46
37655020 TGGTTGAGCA
37655030 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
37655076 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
37655121 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
37655169 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
37655214 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
37655262 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
37655307 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37655355 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37655392 GCGAGTTACA
Statistics
Matches: 262, Mismatches: 27, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 118 0.45
47 84 0.32
48 9 0.03
50 15 0.06
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37655186 original size:93 final size:93
Alignment explanation
Indices: 37655027--37655384 Score: 689
Period size: 93 Copynumber: 3.8 Consensus size: 93
37655017 GGATGGTTGA
37655027 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
37655092 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
37655120 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
37655185 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
37655213 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
37655278 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
37655306 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
37655371 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37655385 CTTATGGGCG
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 262 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37661621 original size:24 final size:24
Alignment explanation
Indices: 37661588--37661634 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37661578 TTTAGATAAT
*
37661588 TTTGTGTTTATGTTTTGAGGGTTC
1 TTTGTGTTTAGGTTTTGAGGGTTC
* *
37661612 TTTGTTTTTAGGTTTTGGGGGTT
1 TTTGTGTTTAGGTTTTGAGGGTT
37661635 TAGTTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.02, G:0.32, T:0.60
Consensus pattern (24 bp):
TTTGTGTTTAGGTTTTGAGGGTTC
Found at i:37666114 original size:94 final size:95
Alignment explanation
Indices: 37666009--37666272 Score: 442
Period size: 94 Copynumber: 2.8 Consensus size: 95
37665999 CTCCTTTCTC
*
37666009 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATATCCTTTAAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
37666074 GCCATCAACTTCTCTTC-TTTTTTCTTTTT
66 GCCATCAACTTCTCTTCTTTTTTTCTTTTT
* *
37666103 TTTTTTCAATTTTCCCCCACATATATAAAAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
37666168 GCCATCAACTTCTCTTCTTTTTTTCTTTTT
66 GCCATCAACTTCTCTTCTTTTTTTCTTTTT
* * * * *
37666198 TTTTTTTAATTTCT-CCCACATATATAAGAAATAAAACTTTTGATTCATCAATGCCCTTTCAGAA
1 TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
37666262 GCCATCAACTT
66 GCCATCAACTT
37666273 TTATAGTCTT
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 136 0.86
95 23 0.14
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (95 bp):
TTTTTTCAATTTTTCCCCACATATATAAGAAATAAAATTTTTGATTCATCAATGTCCTTTAAGAA
GCCATCAACTTCTCTTCTTTTTTTCTTTTT
Found at i:37673297 original size:11 final size:10
Alignment explanation
Indices: 37673281--37673350 Score: 58
Period size: 10 Copynumber: 7.1 Consensus size: 10
37673271 AAAAAAATTT
37673281 ATAATTTTATA
1 ATAATTTT-TA
37673292 ATAA-TTTTA
1 ATAATTTTTA
37673301 ATAATTTTT-
1 ATAATTTTTA
*
37673310 TTAATTTTTTA
1 ATAA-TTTTTA
*
37673321 A-AATATTTTT
1 ATAAT-TTTTA
*
37673331 ATATTTTTTA
1 ATAATTTTTA
37673341 A-AATTTTTA
1 ATAATTTTTA
37673350 A
1 A
37673351 ATTTTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 18 0.38
10 24 0.50
11 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:37673314 original size:9 final size:9
Alignment explanation
Indices: 37673303--37673355 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
37673293 TAATTTTAAT
*
37673303 AATTTTTTT
1 AATTTTTTA
37673312 AATTTTTTAA
1 AATTTTTT-A
37673322 AATATTTTTA
1 AAT-TTTTTA
*
37673332 TATTTTTTA
1 AATTTTTTA
*
37673341 AAATTTTTA
1 AATTTTTTA
37673350 AATTTT
1 AATTTT
37673356 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 26 0.70
10 6 0.16
11 5 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
AATTTTTTA
Found at i:37673319 original size:20 final size:20
Alignment explanation
Indices: 37673296--37673348 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
37673286 TTTATAATAA
37673296 TTTTAATAATTTTTTTA-ATT
1 TTTTAA-AATTTTTTTATATT
*
37673316 TTTTAAAATATTTTTATATT
1 TTTTAAAATTTTTTTATATT
37673336 TTTTAAAATTTTT
1 TTTTAAAATTTTT
37673349 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTAAAATTTTTTTATATT
Found at i:37673329 original size:18 final size:18
Alignment explanation
Indices: 37673296--37673355 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 18
37673286 TTTATAATAA
37673296 TTTTAATAATTTTTTTAATT
1 TTTTAA-AA-TTTTTTAATT
37673316 TTTTAAAATATTTTTATATT
1 TTTTAAAAT-TTTTTA-ATT
*
37673336 TTTTAAAATTTTTAAATT
1 TTTTAAAATTTTTTAATT
37673354 TT
1 TT
37673356 AAAAAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 6 0.16
19 13 0.35
20 18 0.49
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAAATTTTTTAATT
Found at i:37673339 original size:30 final size:31
Alignment explanation
Indices: 37673285--37673348 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
37673275 AAATTTATAA
* **
37673285 TTTTATAATAATTTTAATAATTTTTTTAATT
1 TTTTAAAATAATTTTAATAATTTTTAAAATT
* *
37673316 TTTTAAAAT-ATTTTTATATTTTTTAAAATT
1 TTTTAAAATAATTTTAATAATTTTTAAAATT
37673346 TTT
1 TTT
37673349 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTAAAATAATTTTAATAATTTTTAAAATT
Found at i:37673361 original size:18 final size:18
Alignment explanation
Indices: 37673316--37673363 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
37673306 TTTTTTAATT
* *
37673316 TTTTAAAATATTTTTATA
1 TTTTAAAAAATTTTTAAA
**
37673334 TTTTTTAAAATTTTTAAA
1 TTTTAAAAAATTTTTAAA
37673352 TTTTAAAAAATT
1 TTTTAAAAAATT
37673364 AATTAAATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAAAAAATTTTTAAA
Found at i:37674347 original size:30 final size:30
Alignment explanation
Indices: 37674286--37674348 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
37674276 ATTTATTTTA
* *
37674286 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTGTAAAGACAT
* *
37674316 TTGTTAATTTTATTATTATTGTAGAGGCAT
1 TTGTTAATTTTATTATTATTGTAAAGACAT
37674346 TTG
1 TTG
37674349 ATTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTGTAAAGACAT
Found at i:37679616 original size:22 final size:21
Alignment explanation
Indices: 37679579--37679619 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
37679569 ATCACTACCC
37679579 ATCTTCAAAAACCTTAAAAGA
1 ATCTTCAAAAACCTTAAAAGA
37679600 ATCTTACAAACAA-CTTAAAA
1 ATCTT-CAAA-AACCTTAAAA
37679620 ACATCCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (21 bp):
ATCTTCAAAAACCTTAAAAGA
Found at i:37682715 original size:16 final size:17
Alignment explanation
Indices: 37682689--37682723 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
37682679 CGGAATCGGG
*
37682689 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
37682706 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
37682722 TT
1 TT
37682724 TAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:37686620 original size:91 final size:91
Alignment explanation
Indices: 37686466--37686828 Score: 692
Period size: 91 Copynumber: 4.0 Consensus size: 91
37686456 AAAAAAAAAA
* *
37686466 AATTTCTTAAACT-AAAGAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
1 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
37686530 TAGCAAGTATGCTTGTGAAATTGTGC
66 TAGCAAGTATGCTTGTGAAATTGTGC
37686556 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
1 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
37686621 TAGCAAGTATGCTTGTGAAATTGTGC
66 TAGCAAGTATGCTTGTGAAATTGTGC
37686647 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
1 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
37686712 TAGCAAGTATGCTTGTGAAATTGTGC
66 TAGCAAGTATGCTTGTGAAATTGTGC
*
37686738 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTAAATCT
1 AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
37686803 TAGCAAGTATGCTTGTGAAATTGTGC
66 TAGCAAGTATGCTTGTGAAATTGTGC
37686829 CAAACGAGGA
Statistics
Matches: 269, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
90 12 0.04
91 257 0.96
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (91 bp):
AATTTCTTGAACTAAAAAAAAAGAAATAAATTAGTAGCTGAGTATGAAAGAGAGTTTGTACATCT
TAGCAAGTATGCTTGTGAAATTGTGC
Found at i:37691161 original size:53 final size:54
Alignment explanation
Indices: 37691076--37691279 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
37691066 TTCTTTATTA
* * * *
37691076 AACTTACCATTACCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATAG
* * * * *
37691129 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATAG
** * ** * * * * *
37691183 TAGTTTATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATAG
* * *
37691238 AACTTACCAATGCCATGCCTTGGCATGGTCCTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
37691280 CTTAAACCCT
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.38
54 33 0.28
55 40 0.34
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATAG
Found at i:37692817 original size:53 final size:53
Alignment explanation
Indices: 37692746--37692851 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
37692736 GATTTATGTG
* * *
37692746 TTTATATGGTAAGTTTATCATTTTCACCATTGAGCTTACTAAGA-TTTAGTAAA
1 TTTATATGGTAAGGTTATCATTTTAACCATTGAACTTACTAA-ACTTTAGTAAA
* *
37692799 TTTATATGGTAAGGTTATCGTTTTAACCGTTGAACTTACTAAACTTTAGTAAA
1 TTTATATGGTAAGGTTATCATTTTAACCATTGAACTTACTAAACTTTAGTAAA
37692852 GCTTACTTGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (53 bp):
TTTATATGGTAAGGTTATCATTTTAACCATTGAACTTACTAAACTTTAGTAAA
Found at i:37703892 original size:87 final size:87
Alignment explanation
Indices: 37703717--37703895 Score: 222
Period size: 84 Copynumber: 2.1 Consensus size: 87
37703707 ATGATACAAA
* * *
37703717 AATAACATAAATATGGCATGCATTAAAAAAAAGGGGAGAATACTTGATATACGGTCAGTGTGTAA
1 AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATACTTGATATACGATCAGTGTGTAA
*
37703782 GTCTAATGCACCGTAAGTGAAT
66 GTCTAATGCACCATAAGTGAAT
* ** * *
37703804 AATAACATAAATATGACATGCATT-AAAAAAA-TGGAAAATGTTTGATGTACTATC-G-GTGTAA
1 AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATACTTGATATACGATCAGTGTGT-A
* *
37703865 AGTCTCATGCACCATAGGTGAAT
65 AGTCTAATGCACCATAAGTGAAT
37703888 AATAACAT
1 AATAACAT
37703896 GACAATTTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
83 4 0.05
84 30 0.38
85 16 0.20
86 7 0.09
87 23 0.29
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (87 bp):
AATAACATAAATATGACATGCATTAAAAAAAAGGGGAAAATACTTGATATACGATCAGTGTGTAA
GTCTAATGCACCATAAGTGAAT
Found at i:37707423 original size:6 final size:6
Alignment explanation
Indices: 37707413--37707446 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
37707403 AAGTTTCCAA
*
37707413 AAATGA AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
37707447 TATCCATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:37713978 original size:34 final size:34
Alignment explanation
Indices: 37713935--37714003 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
37713925 TTTGAACGAC
37713935 AATTATTTGGTCATGATGATATGATCCTGCACTA
1 AATTATTTGGTCATGATGATATGATCCTGCACTA
37713969 AATTATTTGGTCATGATGATATGATCCTGCACTA
1 AATTATTTGGTCATGATGATATGATCCTGCACTA
37714003 A
1 A
37714004 CTTTAACACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (34 bp):
AATTATTTGGTCATGATGATATGATCCTGCACTA
Found at i:37722544 original size:22 final size:22
Alignment explanation
Indices: 37722512--37722553 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
37722502 CTATAAAGTA
* *
37722512 ATATTACTTGAATAGTTATGAG
1 ATATTAATTGAATAATTATGAG
37722534 ATATTAATTGAATAATTATG
1 ATATTAATTGAATAATTATG
37722554 TTTCTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATTAATTGAATAATTATGAG
Found at i:37727077 original size:31 final size:30
Alignment explanation
Indices: 37727042--37727109 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
37727032 TTTAACATGC
37727042 TAGTGACTTAAAT-AAATTTTTTTGAATAGTT
1 TAGTGACTTAAATGAAA--TTTTTGAATAGTT
* *
37727073 TAGTGTCTTAGATGAAATTTTTGAATAGTT
1 TAGTGACTTAAATGAAATTTTTGAATAGTT
*
37727103 TAATGAC
1 TAGTGAC
37727110 CTAATTGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 18 0.56
31 11 0.34
32 3 0.09
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (30 bp):
TAGTGACTTAAATGAAATTTTTGAATAGTT
Found at i:37736571 original size:20 final size:20
Alignment explanation
Indices: 37736531--37736593 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
37736521 GATTTCAACA
*
37736531 AAAATTATTTAATTATATTTTT
1 AAAATTATTT--TTTTATTTTT
37736553 AAAA-TATTTTTTTTATTTTT
1 AAAATTA-TTTTTTTATTTTT
* *
37736573 GAGATTATTTTTTTATTTTT
1 AAAATTATTTTTTTATTTTT
37736593 A
1 A
37736594 TAAAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 24 0.69
21 4 0.11
22 7 0.20
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
AAAATTATTTTTTTATTTTT
Found at i:37736631 original size:20 final size:19
Alignment explanation
Indices: 37736602--37736646 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
37736592 TATAAAAATT
*
37736602 TAAAATTTATATACATTTAA
1 TAAAAATTATAT-CATTTAA
* *
37736622 TAAAAATTATATCTTTTTA
1 TAAAAATTATATCATTTAA
37736641 TAAAAA
1 TAAAAA
37736647 GAAATAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATTATATCATTTAA
Found at i:37737322 original size:29 final size:31
Alignment explanation
Indices: 37737290--37737361 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
37737280 AATTAGGGAT
*
37737290 ATAAATAATTATATTTATTT-GATGTA-ATA
1 ATAAATAATTATATTTATTTAAATGTATATA
37737319 ATAAATTAA-TATATTTATTTAAATGTATATA
1 ATAAA-TAATTATATTTATTTAAATGTATATA
*
37737350 ATTAA-AATTATA
1 ATAAATAATTATA
37737362 CTAAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 18 0.49
30 12 0.32
31 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (31 bp):
ATAAATAATTATATTTATTTAAATGTATATA
Found at i:37743142 original size:21 final size:21
Alignment explanation
Indices: 37743118--37743246 Score: 91
Period size: 21 Copynumber: 6.2 Consensus size: 21
37743108 AAAGCTGAAC
*
37743118 AGAAGCTCATGAGAGCTAAAT
1 AGAAGCTCATAAGAGCTAAAT
37743139 AGAAGCTCATAAGAGCTAACA-
1 AGAAGCTCATAAGAGCTAA-AT
* * * * * *
37743160 A-AAACCCATAAGGGTTTAAC
1 AGAAGCTCATAAGAGCTAAAT
* * *
37743180 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTAAAT
* * * *
37743201 AGAAACTCATATGAGTTAAAC
1 AGAAGCTCATAAGAGCTAAAT
* *
37743222 AGAAGCTCAAAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAT
37743243 AGAA
1 AGAA
37743247 AGTAAAACAC
Statistics
Matches: 84, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
19 1 0.01
20 13 0.15
21 69 0.82
22 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTAAAT
Found at i:37743228 original size:42 final size:41
Alignment explanation
Indices: 37743110--37743247 Score: 152
Period size: 42 Copynumber: 3.3 Consensus size: 41
37743100 GAAGCCTGAA
* * *
37743110 AGCTGAACAGAAGCTCATGAGAGCTAAATAGAAGCTCATAAG
1 AGCTGAACAGAAACTCAT-AGAGTTAAACAGAAGCTCATAAG
* * * * *
37743152 AGCT-AACAAAAACCCATAAGGGTTTAACAGAAGCTCGTAAG
1 AGCTGAACAGAAACTCAT-AGAGTTAAACAGAAGCTCATAAG
*
37743193 AGCTGAACAGAAACTCATATGAGTTAAACAGAAGCTCAAAAG
1 AGCTGAACAGAAACTCATA-GAGTTAAACAGAAGCTCATAAG
*
37743235 AGCTAAACAGAAA
1 AGCTGAACAGAAA
37743248 GTAAAACACG
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 33 0.42
42 45 0.58
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.16
Consensus pattern (41 bp):
AGCTGAACAGAAACTCATAGAGTTAAACAGAAGCTCATAAG
Found at i:37746873 original size:22 final size:22
Alignment explanation
Indices: 37746845--37746891 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
37746835 AGACTCTCGA
*
37746845 TTTTGAAGAATCAATAAACCTC
1 TTTTGAAAAATCAATAAACCTC
*
37746867 TTTTGAAAAATTAATAAACCTC
1 TTTTGAAAAATCAATAAACCTC
37746889 TTT
1 TTT
37746892 CGAGGTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (22 bp):
TTTTGAAAAATCAATAAACCTC
Found at i:37750000 original size:2 final size:2
Alignment explanation
Indices: 37749995--37750025 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
37749985 AAAAAACATG
*
37749995 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37750026 GCCATCCACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37766809 original size:37 final size:37
Alignment explanation
Indices: 37766758--37766828 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
37766748 CATTCTTGTA
37766758 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
37766795 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
37766829 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:37766828 original size:6 final size:6
Alignment explanation
Indices: 37766768--37766817 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
37766758 AAGAGAAAAC
*
37766768 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
37766817 A
1 A
37766818 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:37766910 original size:11 final size:12
Alignment explanation
Indices: 37766878--37766908 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37766868 TTGAGAGAAC
37766878 TTGAAAAAGCCT
1 TTGAAAAAGCCT
37766890 TTGAAAAAGCCT
1 TTGAAAAAGCCT
37766902 TTGAAAA
1 TTGAAAA
37766909 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:37769470 original size:30 final size:30
Alignment explanation
Indices: 37769375--37769471 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
37769365 AGCTCCCTCC
37769375 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * * *
37769405 TAGCGCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
37769435 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
37769465 TAGCTCA
1 TAGCTCA
37769472 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:37769619 original size:110 final size:110
Alignment explanation
Indices: 37769426--37769645 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
37769416 CAGCTTAGGA
*
37769426 GTTTAGCCTCAGCTCAACTTTAGCTCACGAGCTAAAACTTAGCTCATTTTAGTTTAAACTCGGTT
1 GTTTAGCCTCAGCTCAACTTTAGCTCACGAGCTAAAACTTAGCTCATTTTAGTTTAAACTCGATT
37769491 TTGTCTTTAATACATTAAATAAAATTTGCACATATTCATTTAAGC
66 TTGTCTTTAATACATTAAATAAAATTTGCACATATTCATTTAAGC
37769536 GTTTAGCCTCAGCTCAACTTTAGCTCACGAGCTAAAACTTAGCTCATTTTAGTTTAAACTCGATT
1 GTTTAGCCTCAGCTCAACTTTAGCTCACGAGCTAAAACTTAGCTCATTTTAGTTTAAACTCGATT
37769601 TTGTCTTTAATACATTAAATAAAATTTGCACATATTCATTTAAGC
66 TTGTCTTTAATACATTAAATAAAATTTGCACATATTCATTTAAGC
37769646 ATTAAACTTG
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (110 bp):
GTTTAGCCTCAGCTCAACTTTAGCTCACGAGCTAAAACTTAGCTCATTTTAGTTTAAACTCGATT
TTGTCTTTAATACATTAAATAAAATTTGCACATATTCATTTAAGC
Found at i:37771804 original size:27 final size:27
Alignment explanation
Indices: 37771766--37771820 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
37771756 AACAGATAAA
37771766 TATAAGTCCAGAGAAAAAGGAGTGAGT
1 TATAAGTCCAGAGAAAAAGGAGTGAGT
37771793 TATAAGTCCAGAGAAAAAGGAGTGAGT
1 TATAAGTCCAGAGAAAAAGGAGTGAGT
37771820 T
1 T
37771821 CCTTCATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.29, T:0.20
Consensus pattern (27 bp):
TATAAGTCCAGAGAAAAAGGAGTGAGT
Found at i:37777003 original size:25 final size:26
Alignment explanation
Indices: 37776954--37777004 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
37776944 AATAAATTAT
* * *
37776954 TGTGAATTAAATAAAATATAGAAACA
1 TGTGAATTAAACAAAATACACAAACA
37776980 TGTG-ATTAAACAAAATACACAAACA
1 TGTGAATTAAACAAAATACACAAACA
37777005 AAACTCACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (26 bp):
TGTGAATTAAACAAAATACACAAACA
Found at i:37777280 original size:16 final size:16
Alignment explanation
Indices: 37777261--37777299 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
37777251 AATTTTAAAA
37777261 TTAAAATTCAT-ATTT
1 TTAAAATTCATAATTT
*
37777276 TTTAAATTCATAATTT
1 TTAAAATTCATAATTT
37777292 TTAAAATT
1 TTAAAATT
37777300 TTATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAAATTCATAATTT
Found at i:37777307 original size:15 final size:16
Alignment explanation
Indices: 37777261--37777299 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
37777251 AATTTTAAAA
37777261 TTAAAATTCATATTTT
1 TTAAAATTCATATTTT
*
37777277 TT-AAATTCATAATTT
1 TTAAAATTCATATTTT
37777292 TTAAAATT
1 TTAAAATT
37777300 TTATTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAAAATTCATATTTT
Found at i:37777359 original size:23 final size:22
Alignment explanation
Indices: 37777333--37777375 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37777323 AAATTTAAGA
*
37777333 ATTTAAATTAGTTCAAATTTATT
1 ATTTAAA-TACTTCAAATTTATT
*
37777356 ATTTCAATACTTCAAATTTA
1 ATTTAAATACTTCAAATTTA
37777376 GATTTCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTAAATACTTCAAATTTATT
Found at i:37786105 original size:15 final size:15
Alignment explanation
Indices: 37786085--37786155 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
37786075 CTCAAATTAT
37786085 TATTATTTTTATATA
1 TATTATTTTTATATA
* *
37786100 TATTATATTCTCACATA
1 TATTAT-TT-TTATATA
37786117 TATTATATATTTAT-TA
1 TATTAT-T-TTTATATA
*
37786133 -ATTATTTATATATA
1 TATTATTTTTATATA
*
37786147 TATTGTTTT
1 TATTATTTT
37786156 ACATGTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 3 0.07
15 17 0.39
16 4 0.09
17 15 0.34
18 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (15 bp):
TATTATTTTTATATA
Found at i:37786121 original size:35 final size:36
Alignment explanation
Indices: 37786061--37786128 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
37786051 TTATTACTAT
*
37786061 TATATATTATTTTCCTCAAATTATTAT-TATTTTTA
1 TATATATTATATTCCTCAAATTATTATATATTTTTA
*
37786096 TATATATTATATT-CTCACATATATTATATATTT
1 TATATATTATATTCCTCAAAT-TATTATATATTT
37786129 ATTAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 6 0.21
35 18 0.62
36 5 0.17
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (36 bp):
TATATATTATATTCCTCAAATTATTATATATTTTTA
Found at i:37786297 original size:20 final size:20
Alignment explanation
Indices: 37786264--37786302 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37786254 TGTATCGCCA
* *
37786264 ATTATATTTTTTATGATTAC
1 ATTATATATATTATGATTAC
*
37786284 ATTATATATATTATTATTA
1 ATTATATATATTATGATTA
37786303 TTAAATCATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTATATATATTATGATTAC
Found at i:37788512 original size:334 final size:335
Alignment explanation
Indices: 37787880--37788540 Score: 934
Period size: 334 Copynumber: 2.0 Consensus size: 335
37787870 GGGATACGAA
* * * *
37787880 ACTGGTGGTGTTGGACCAGGCTGATAGTAGACAAATTCTGGGTTAACCATTGGGAGTGGTCCATC
1 ACTGGTGGTGTTGGACCAGGATGATAGTAGACAAATTCTAGGTCAACCATCGGGAGTGGTCCATC
** * ** *
37787945 GGGGTGAAAGTGAAGTGACACTCATGGACGATTCATTTGATAAGTAATGGTGCCCTAAAATGTTT
66 AAGGTGAAAGCGAAGCAACACTCATGGACGATTCATTTGATAAGTAATGGTGCCATAAAATGTTT
* * * * *
37788010 AGCTGCTTCTAATTTTGATTTTTATAATGTCAAGAATTTTTGTATGGAATTACCAAGGTGCTGGA
131 AGCTGCTTCTAATTCTAATTCTTATAATGTCAAGAATTTTTGTATGGAACTACCAAGGTACTGGA
* * * * * * *
37788075 CACTCTAATTTTGGCAGAATTATGAAGGAGTATTTATGTGAAGTAGATCCTTGTGTTTTAGTTTT
196 CACCCTAATTTTGGAAGAATTATAAAGGAGTATTTACGCGAAGTAGATCCCTGTGTTGTAGTTTT
*
37788140 AATGGAAACCTGAATTAGTGGATTAAAAGCTGATAGAGTGATTAAAAGTATTAGCCTGCCTTACT
261 AATGGAAACCTGAATTAGTGGATTAAAAGCCGATAGAGTGATTAAAAGTATTAGCCTGCCTTACT
37788205 CGAATATGAC
326 CGAATATGAC
* * * *
37788215 ACTGGTGGTGTTGGACTAGGATGATA--ACGAACAAATTCTAGGTCGACTATCGGGAGTGGTCTA
1 ACTGGTGGTGTTGGACCAGGATGATAGTA-G-ACAAATTCTAGGTCAACCATCGGGAGTGGTCCA
* * *
37788278 TCAAGGTGAAAGCGATGCAACACTCATGGACTATTCATTTGATAAGTAATGGTGCTATCAAAA-G
64 TCAAGGTGAAAGCGAAGCAACACTCATGGACGATTCATTTGATAAGTAATGGTGCCAT-AAAATG
* * *
37788342 TTTGGCTGTTTCTAATTCTAATTCTTATAATGTCAAGAA-TTTTGTATGGAACTGCCAAGGTACT
128 TTTAGCTGCTTCTAATTCTAATTCTTATAATGTCAAGAATTTTTGTATGGAACTACCAAGGTACT
*
37788406 GGACACCCTAATTTTGGAAGAATTATAAAGGAGTATTTACGCGAAGTAGATCCCTGTGTTGTGGT
193 GGACACCCTAATTTTGGAAGAATTATAAAGGAGTATTTACGCGAAGTAGATCCCTGTGTTGTAGT
* * *
37788471 TTTGATGGAAACCTGAATTAGTGGATTAAAAGCCGATAGAGTGATTAAAAGTATTGGTCTGCCTT
258 TTTAATGGAAACCTGAATTAGTGGATTAAAAGCCGATAGAGTGATTAAAAGTATTAGCCTGCCTT
37788536 ACTCG
323 ACTCG
37788541 CATTGGGTGG
Statistics
Matches: 286, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
333 1 0.00
334 146 0.51
335 135 0.47
336 4 0.01
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (335 bp):
ACTGGTGGTGTTGGACCAGGATGATAGTAGACAAATTCTAGGTCAACCATCGGGAGTGGTCCATC
AAGGTGAAAGCGAAGCAACACTCATGGACGATTCATTTGATAAGTAATGGTGCCATAAAATGTTT
AGCTGCTTCTAATTCTAATTCTTATAATGTCAAGAATTTTTGTATGGAACTACCAAGGTACTGGA
CACCCTAATTTTGGAAGAATTATAAAGGAGTATTTACGCGAAGTAGATCCCTGTGTTGTAGTTTT
AATGGAAACCTGAATTAGTGGATTAAAAGCCGATAGAGTGATTAAAAGTATTAGCCTGCCTTACT
CGAATATGAC
Found at i:37789807 original size:19 final size:19
Alignment explanation
Indices: 37789783--37789820 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
37789773 ATCTTCATTC
37789783 TATAGCTGAAAGTAAGAGG
1 TATAGCTGAAAGTAAGAGG
37789802 TATAGCTGAAAGTAAGAGG
1 TATAGCTGAAAGTAAGAGG
37789821 AAAGAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.32, T:0.21
Consensus pattern (19 bp):
TATAGCTGAAAGTAAGAGG
Found at i:37790713 original size:24 final size:23
Alignment explanation
Indices: 37790655--37790746 Score: 107
Period size: 24 Copynumber: 3.9 Consensus size: 23
37790645 AACTCACTGT
*
37790655 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTAAGAGCTTACTG-T-T-TC
37790681 AGCTCGTAAGAGCTTACTGTTCTC
1 AGCTCGTAAGAGCTTACTGTT-TC
*
37790705 AGCTTGTAAGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTGTTTC
37790728 AGCTC--AATGAGCTTACTGT
1 AGCTCGTAA-GAGCTTACTGT
37790747 CCATCAGCTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.03
22 11 0.18
23 6 0.10
24 23 0.38
25 1 0.02
26 18 0.30
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTGTTTC
Found at i:37790723 original size:50 final size:47
Alignment explanation
Indices: 37790655--37790769 Score: 119
Period size: 50 Copynumber: 2.4 Consensus size: 47
37790645 AACTCACTGT
* *
37790655 AGCTCGTATGAGCTTACTGATATATCAGCTCGTAA-GAGCTTACTGTTC-TC
1 AGCTCGTAAGAGCTTACTG-T-T-TCAGCTC--AATGAGCTTACTGTCCATC
*
37790705 AGCTTGTAAGAGCTTACTGTTTCAGCTCAATGAGCTTACTGTCCATC
1 AGCTCGTAAGAGCTTACTGTTTCAGCTCAATGAGCTTACTGTCCATC
37790752 AGCTCAG-AAGGAGCTTAC
1 AGCTC-GTAA-GAGCTTAC
37790770 CGATCATAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
45 2 0.04
46 12 0.21
47 15 0.26
48 10 0.18
49 1 0.02
50 17 0.30
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (47 bp):
AGCTCGTAAGAGCTTACTGTTTCAGCTCAATGAGCTTACTGTCCATC
Found at i:37790769 original size:26 final size:24
Alignment explanation
Indices: 37790655--37790769 Score: 96
Period size: 26 Copynumber: 4.7 Consensus size: 24
37790645 AACTCACTGT
* *
37790655 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTAAGAGCTTACTG-T-CATC
37790681 AGCTCGTAAGAGCTTACTGTTC-TC
1 AGCTCGTAAGAGCTTACTG-TCATC
* *
37790705 AGCTTGTAAGAGCTTACTGT-TTC
1 AGCTCGTAAGAGCTTACTGTCATC
37790728 AGCTC--AATGAGCTTACTGTCCATC
1 AGCTCGTAA-GAGCTTACTGT-CATC
37790752 AGCTCAG-AAGGAGCTTAC
1 AGCTC-GTAA-GAGCTTAC
37790770 CGATCATAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.03
22 11 0.14
23 7 0.09
24 27 0.36
26 29 0.38
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTGTCATC
Found at i:37790939 original size:19 final size:19
Alignment explanation
Indices: 37790915--37790994 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
37790905 AAAAGCTATG
*
37790915 TGTTATACGGATGAATTAT
1 TGTTATACGGATGAATTAC
* **
37790934 TGTTATATGGATGAGGTAC
1 TGTTATACGGATGAATTAC
* *
37790953 TATTTATACGGATGAGTTAC
1 T-GTTATACGGATGAATTAC
*
37790973 TGTTAT-CGAATGAATTAC
1 TGTTATACGGATGAATTAC
37790991 TGTT
1 TGTT
37790995 TATATGATTG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
18 14 0.28
19 20 0.40
20 16 0.32
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (19 bp):
TGTTATACGGATGAATTAC
Found at i:37790965 original size:20 final size:20
Alignment explanation
Indices: 37790936--37790973 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37790926 TGAATTATTG
*
37790936 TTATATGGATGAGGTACTAT
1 TTATACGGATGAGGTACTAT
*
37790956 TTATACGGATGAGTTACT
1 TTATACGGATGAGGTACT
37790974 GTTATCGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (20 bp):
TTATACGGATGAGGTACTAT
Found at i:37795270 original size:12 final size:12
Alignment explanation
Indices: 37795253--37795283 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37795243 CGCCACACAA
37795253 CCGTGTGGTAGG
1 CCGTGTGGTAGG
37795265 CCGTGTGGTAGG
1 CCGTGTGGTAGG
37795277 CCGTGTG
1 CCGTGTG
37795284 CCCTAAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.48, T:0.26
Consensus pattern (12 bp):
CCGTGTGGTAGG
Found at i:37802820 original size:20 final size:20
Alignment explanation
Indices: 37802795--37802833 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37802785 CACTATGAAC
*
37802795 CCAAAAGATA-ATAAAAAAA
1 CCAAAAAATATATAAAAAAA
37802814 CCAAAAAATATATAAAAAAA
1 CCAAAAAATATATAAAAAAA
37802834 GTCCCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.74, C:0.10, G:0.03, T:0.13
Consensus pattern (20 bp):
CCAAAAAATATATAAAAAAA
Found at i:37804342 original size:21 final size:20
Alignment explanation
Indices: 37804309--37804347 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
37804299 TATATATACA
37804309 TATATATATATATTGTTTTG
1 TATATATATATATTGTTTTG
*
37804329 TATATCATTTATATTGTTT
1 TATAT-ATATATATTGTTT
37804348 CATCACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TATATATATATATTGTTTTG
Found at i:37824607 original size:15 final size:15
Alignment explanation
Indices: 37824587--37824624 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
37824577 CATATTCATC
37824587 AAAATAGTTTGGATA
1 AAAATAGTTTGGATA
37824602 AAAATAGTTTGGATA
1 AAAATAGTTTGGATA
*
37824617 ACAATAGT
1 AAAATAGT
37824625 GGTCCAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (15 bp):
AAAATAGTTTGGATA
Found at i:37827323 original size:22 final size:21
Alignment explanation
Indices: 37827272--37827327 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
37827262 CACGGCCTAG
*
37827272 CACACGGGCGTGTCCCAAGGT
1 CACACGGGCGTGTCCCAAGGC
* **
37827293 CACATGGGCGTGTCCCTTGGAC
1 CACACGGGCGTGTCCCAAGG-C
37827315 CACACGGGCGTGT
1 CACACGGGCGTGT
37827328 GAGCCCTGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (21 bp):
CACACGGGCGTGTCCCAAGGC
Found at i:37828520 original size:21 final size:22
Alignment explanation
Indices: 37828477--37828531 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
37828467 TAATACCCGT
*
37828477 CCAAAATTCAAAATAACAAGGC
1 CCAAAATACAAAATAACAAGGC
* *
37828499 CCAAAATACAAATTAA-ATGGC
1 CCAAAATACAAAATAACAAGGC
*
37828520 CCAATA-ACAAAA
1 CCAAAATACAAAA
37828532 AAAACCAGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 5 0.18
21 9 0.32
22 14 0.50
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (22 bp):
CCAAAATACAAAATAACAAGGC
Found at i:37829434 original size:17 final size:17
Alignment explanation
Indices: 37829412--37829446 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37829402 CTTTAACCCC
*
37829412 TGTGCATTTGTACTCAT
1 TGTGCATTGGTACTCAT
*
37829429 TGTGCATTGGTCCTCAT
1 TGTGCATTGGTACTCAT
37829446 T
1 T
37829447 TTAATTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (17 bp):
TGTGCATTGGTACTCAT
Found at i:37830167 original size:28 final size:27
Alignment explanation
Indices: 37830136--37830192 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
37830126 TATTCTTTCA
* *
37830136 TATTTTATATATTATTCA-AAATTTTCTT
1 TATTGTATATATT-TTAATAAATTTT-TT
*
37830164 TATTGTATGTATTTTAATAAATTTTTT
1 TATTGTATATATTTTAATAAATTTTTT
37830191 TA
1 TA
37830193 ACACATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTGTATATATTTTAATAAATTTTTT
Found at i:37830313 original size:23 final size:22
Alignment explanation
Indices: 37830279--37830322 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
37830269 GTTTTTTAAA
*
37830279 TTCATCAATTCATATATTATGTG
1 TTCATCAATTCAT-CATTATGTG
*
37830302 TTCATCAGTTCATCATTATGT
1 TTCATCAATTCATCATTATGT
37830323 TAAATCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (22 bp):
TTCATCAATTCATCATTATGTG
Found at i:37832134 original size:20 final size:21
Alignment explanation
Indices: 37832094--37832134 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
37832084 CAAACTCCCA
37832094 AAACTTTTTATTTTCTCCCCT
1 AAACTTTTTATTTTCTCCCCT
37832115 AAAC-TTTTA-TTTCTCACCCT
1 AAACTTTTTATTTTCTC-CCCT
37832135 TTACCCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (21 bp):
AAACTTTTTATTTTCTCCCCT
Found at i:37839657 original size:35 final size:34
Alignment explanation
Indices: 37839612--37839682 Score: 115
Period size: 35 Copynumber: 2.1 Consensus size: 34
37839602 TCTAACTAGC
*
37839612 TTCGATTTTATTGTAGGCTCTTAAATATTGTGAT
1 TTCGATTTTATTGTAAGCTCTTAAATATTGTGAT
*
37839646 TTCGAATTTTATTGTAAGCTCTTAGATATTGTGAT
1 TTCG-ATTTTATTGTAAGCTCTTAAATATTGTGAT
37839681 TT
1 TT
37839683 TGAGTGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.24, C:0.08, G:0.17, T:0.51
Consensus pattern (34 bp):
TTCGATTTTATTGTAAGCTCTTAAATATTGTGAT
Found at i:37845582 original size:13 final size:13
Alignment explanation
Indices: 37845564--37845589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37845554 ACGTTCGATA
37845564 AGGATGGATACAC
1 AGGATGGATACAC
37845577 AGGATGGATACAC
1 AGGATGGATACAC
37845590 TACCAGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
AGGATGGATACAC
Found at i:37864193 original size:34 final size:35
Alignment explanation
Indices: 37864134--37864199 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
37864124 AACACTTTAG
* *
37864134 ATGCTCGTAAGAGCTAATCCATCCGAGACACACCA
1 ATGCTCATAAGAGCTAATCCATCCGAAACACACCA
*
37864169 ATGCTCATAAGATCT-ATCCATCCGAAACACA
1 ATGCTCATAAGAGCTAATCCATCCGAAACACA
37864200 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (35 bp):
ATGCTCATAAGAGCTAATCCATCCGAAACACACCA
Found at i:37869108 original size:20 final size:21
Alignment explanation
Indices: 37869063--37869109 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
37869053 ACGGTAAGTG
*
37869063 ACTTA-ATGAAAAGTTTCATA
1 ACTTATATGAAAAGGTTCATA
37869083 AC-TATATGAAAAGGTTCAT-
1 ACTTATATGAAAAGGTTCATA
*
37869102 GCTTATAT
1 ACTTATAT
37869110 CATGTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (21 bp):
ACTTATATGAAAAGGTTCATA
Found at i:37870124 original size:26 final size:26
Alignment explanation
Indices: 37870095--37870202 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
37870085 TGGTACAAAT
37870095 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
37870121 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37870147 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
37870173 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
37870199 TGAT
1 TGAT
37870203 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:37873386 original size:99 final size:99
Alignment explanation
Indices: 37873241--37873425 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
37873231 GGCATATACA
* * * *
37873241 TGTGTGTGTTTAAGTAAGGTTTTGATGCTTTGAAAGTGTGCATTATTGGTCTAAATGTTTATGTA
1 TGTGTGTGTTTAAGTAAGGTCTTGACGCTTTGAAAGTGTGCATTATTAGTCTAAATGTTTATATA
37873306 TGAAATGGTCTTGGAAATGGCATGTGTGTGTGTG
66 TGAAATGGTCTTGGAAATGGCATGTGTGTGTGTG
* *
37873340 TGTGTGTGTTTAGGTAAGGTCTTGACGCTTTGAAAGTGTGCATTATTAGTGTAAATGTTTATATA
1 TGTGTGTGTTTAAGTAAGGTCTTGACGCTTTGAAAGTGTGCATTATTAGTCTAAATGTTTATATA
37873405 TGAAATGGTCTTGGAAATGGC
66 TGAAATGGTCTTGGAAATGGC
37873426 TTGTTTTTGG
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (99 bp):
TGTGTGTGTTTAAGTAAGGTCTTGACGCTTTGAAAGTGTGCATTATTAGTCTAAATGTTTATATA
TGAAATGGTCTTGGAAATGGCATGTGTGTGTGTG
Found at i:37879344 original size:16 final size:16
Alignment explanation
Indices: 37879323--37879355 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37879313 TAACTCAAGA
37879323 TCATGCATTGGATAGT
1 TCATGCATTGGATAGT
*
37879339 TCATGCGTTGGATAGT
1 TCATGCATTGGATAGT
37879355 T
1 T
37879356 GCCCTCATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (16 bp):
TCATGCATTGGATAGT
Found at i:37887849 original size:32 final size:28
Alignment explanation
Indices: 37887807--37887865 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
37887797 CAGTCGCATC
37887807 ATTTTATATTTACTAACATGAAAATAATTAG
1 ATTTTATATTT--TAA-ATGAAAATAATTAG
*
37887838 ATTTATATATTTTAAATGCAAATAATTA
1 ATTT-TATATTTTAAATGAAAATAATTA
37887866 AATCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 4 0.15
32 7 0.27
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (28 bp):
ATTTTATATTTTAAATGAAAATAATTAG
Done.